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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ), 'gf_id' => 'HOM05D000999', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000999' ), 'data_identifier' => 'HOM05D000999', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000999', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '606', 'num_species' => '97' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p43650' => 'bna', 'A04p21750' => 'bna', 'A04p28540' => 'bna', 'A05p08560' => 'bna', 'A07p21710' => 'bna', 'A09p46540' => 'bna', 'A10p33040' => 'bna', 'Aa31LG10G9590' => 'aar', 'Aa31LG1G22200' => 'aar', 'Aa31LG5G22800' => 'aar', 'Aa31LG5G7550' => 'aar', 'Aa31LG8G11150' => 'aar', 'Actinidia00256' => 'ach', 'Actinidia07075' => 'ach', 'Actinidia09408' => 'ach', 'Actinidia19751' => 'ach', 'Actinidia20343' => 'ach', 'Actinidia37250' => 'ach', 'Ah.04g162240' => 'amhyb', 'Ah.09g232100' => 'amhyb', 'Ah.12g052280' => 'amhyb', 'Ah.15g096780' => 'amhyb', 'AL3G39880' => 'aly', 'AL4G23190' => 'aly', 'AL4G33770' => 'aly', 'AL4G34330' => 'aly', 'AL5G34450' => 'aly', 'AL6G11880' => 'aly', 'Aqoxy2G01986' => 'aox', 'Aqoxy4G03061' => 'aox', 'Aqoxy6G00556' => 'aox', 'Aqoxy7G01819' => 'aox', 'arahy.Tifrunner.gnm1.ann1.5ZE3N1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6LAD91' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7QC42K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8IHJ7B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9BP30P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AU7TPI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ER4998' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FQH85A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2F35R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NBD2TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RI26T3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RRY0UC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T4CT7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UCUQ1W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UT7BQ5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VWR9F9' => 'arhy', 'AT2G28660' => 'ath', 'AT2G37390' => 'ath', 'AT3G24450' => 'ath', 'AT3G53530' => 'ath', 'AT5G02600' => 'ath', 'ATR0564G242' => 'atr', 'ATR0759G031' => 'atr', 'Atru.chr3.3805' => 'acertr', 'Atru.chr6.937' => 'acertr', 'Atru.chr7.1310' => 'acertr', 'Atru.chr8.2488' => 'acertr', 'AUR62001846' => 'cqu', 'AUR62009638' => 'cqu', 'AUR62010447' => 'cqu', 'AUR62021527' => 'cqu', 'AUR62030468' => 'cqu', 'AUR62035482' => 'cqu', 'BcaB01g00266' => 'bca', 'BcaB01g03115' => 'bca', 'BcaB01g03116' => 'bca', 'BcaB02g07778' => 'bca', 'BcaB02g09284' => 'bca', 'BcaB03g14585' => 'bca', 'BcaB05g21880' => 'bca', 'BcaB06g28239' => 'bca', 'BcaB06g28987' => 'bca', 'BcaC01g03314' => 'bca', 'BcaC02g07522' => 'bca', 'BcaC02g08148' => 'bca', 'BcaC03g13050' => 'bca', 'BcaC06g32002' => 'bca', 'BcaC07g39715' => 'bca', 'BcaC08g44630' => 'bca', 'BcaC08g44632' => 'bca', 'BcaNung03285' => 'bca', 'BolC2t06056H' => 'bol', 'BolC3t17636H' => 'bol', 'BolC4t22655H' => 'bol', 'BolC4t27306H' => 'bol', 'BolC4t27309H' => 'bol', 'BolC4t28091H' => 'bol', 'BolC6t37332H' => 'bol', 'BolC8t50489H' => 'bol', 'BolC9t60136H' => 'bol', 'BraA02t04725Z' => 'bra', 'BraA03t13502Z' => 'bra', 'BraA04t17741Z' => 'bra', 'BraA04t18332Z' => 'bra', 'BraA05t19824Z' => 'bra', 'BraA07t29853Z' => 'bra', 'BraA09t40119Z' => 'bra', 'BraA10t45341Z' => 'bra', 'C02p00570' => 'bna', 'C02p00580' => 'bna', 'C03p53760' => 'bna', 'C04p10640' => 'bna', 'C04p57860' => 'bna', 'C04p65870' => 'bna', 'C06p21500' => 'bna', 'C08p28870' => 'bna', 'C09p74010' => 'bna', 'CAN.G523.90' => 'can', 'CAN.G687.6' => 'can', 'CAN.G713.34' => 'can', 'CAN.G730.44' => 'can', 'CAN.G755.12' => 'can', 'CANSAT11G0318' => 'cansat', 'CANSAT54G2910' => 'cansat', 'CANSAT56G4528' => 'cansat', 'CANSAT80G0190' => 'cansat', 'CARHR100540' => 'chi', 'CARHR121770' => 'chi', 'CARHR132210' => 'chi', 'CARHR163440' => 'chi', 'CARHR210750' => 'chi', 'Carub.0003s2475' => 'cru', 'Carub.0004s0965' => 'cru', 'Carub.0004s1929' => 'cru', 'Carub.0005s2011' => 'cru', 'Carub.0006s0141' => 'cru', 'Ca_04346_v3' => 'car', 'Ca_08797_v3' => 'car', 'Ca_09595_v3' => 'car', 'Cc00_g29460' => 'ccan', 'Cc01_g12180' => 'ccan', 'Cc02_g09880' => 'ccan', 'Cc02_g21770' => 'ccan', 'Cc06_g03140' => 'ccan', 'Cc06_g09440' => 'ccan', 'CDE03G0207' => 'cde', 'CDE04G1333' => 'cde', 'CDE06G0726' => 'cde', 'CDE06G1828' => 'cde', 'CDE07G0485' => 'cde', 'Cfa003284' => 'cfa', 'Cfa005632' => 'cfa', 'Cfa017449' => 'cfa', 'Ciclev10002596m.g' => 'ccl', 'Ciclev10009855m.g' => 'ccl', 'Ciclev10012329m.g' => 'ccl', 'Ciclev10029192m.g' => 'ccl', 'CiPaw.03G234500' => 'cil', 'CiPaw.04G166700' => 'cil', 'CiPaw.05G038300' => 'cil', 'CiPaw.06G151900' => 'cil', 'CiPaw.09G187200' => 'cil', 'CiPaw.10G141500' => 'cil', 'CiPaw.13G100600' => 'cil', 'ClCG02G020660' => 'cla', 'ClCG04G008530' => 'cla', 'ClCG05G021700' => 'cla', 'ClCG06G010330' => 'cla', 'ClCG09G015140' => 'cla', 'ClCG10G020850' => 'cla', 'COL.COLO4_09161' => 'col', 'COL.COLO4_18433' => 'col', 'COL.COLO4_33876' => 'col', 'COL.COLO4_33877' => 'col', 'COL.COLO4_34885' => 'col', 'Cpa.g.sc100.29' => 'cpa', 'Cpa.g.sc114.4' => 'cpa', 'Cpa.g.sc23.127' => 'cpa', 'Cpa.g.sc252.10' => 'cpa', 'Cre09.g392467' => 'cre', 'CsaV3_1G030750' => 'csa', 'CsaV3_2G002400' => 'csa', 'CsaV3_3G035170' => 'csa', 'CsaV3_4G024620' => 'csa', 'CsaV3_6G022110' => 'csa', 'CsaV3_7G006310' => 'csa', 'CSS0000493' => 'camsi', 'CSS0017327' => 'camsi', 'CSS0032310' => 'camsi', 'CSS0036744' => 'camsi', 'CSS0048995' => 'camsi', 'DCAR_015590' => 'dca', 'DCAR_016078' => 'dca', 'DCAR_017761' => 'dca', 'DCAR_018872' => 'dca', 'DCAR_031728' => 'dca', 'Dinv24210' => 'din', 'Dinv26280' => 'din', 'Dinv32856' => 'din', 'Dinv35660' => 'din', 'Dinv37220' => 'din', 'Dinv41582' => 'din', 'Duzib093G1882' => 'dzi', 'Duzib128G0279' => 'dzi', 'Duzib150G0517' => 'dzi', 'Duzib168G2065' => 'dzi', 'Duzib170G0162' => 'dzi', 'Duzib187G2003' => 'dzi', 'Duzib248G0054' => 'dzi', 'ECA234G2658' => 'eca', 'ECA236G0488' => 'eca', 'ECA248G2188' => 'eca', 'ECA248G3278' => 'eca', 'EL10Ac5g12529' => 'bvu', 'EL10Ac7g15951' => 'bvu', 'EL10Ac8g18524' => 'bvu', 'Eucgr.A01222' => 'egr', 'Eucgr.B02409' => 'egr', 'Eucgr.C01069' => 'egr', 'Eucgr.C03872' => 'egr', 'Eucgr.C04124' => 'egr', 'Eucgr.I02688' => 'egr', 'Eucgr.K03174' => 'egr', 'FAN01G2348' => 'fan', 'FAN02G0868' => 'fan', 'FAN03G1140' => 'fan', 'FAN04G2661' => 'fan', 'FAN05G5331' => 'fan', 'FAN08G3513' => 'fan', 'FAN09G2510' => 'fan', 'FAN11G1581' => 'fan', 'FAN13G0105' => 'fan', 'FAN14G5219' => 'fan', 'FAN16G0228' => 'fan', 'FAN16G2213' => 'fan', 'FAN18G2352' => 'fan', 'FAN19G1847' => 'fan', 'FAN21G1712' => 'fan', 'FAN23G2781' => 'fan', 'FAN26G1357' => 'fan', 'FAN26G1374' => 'fan', 'FAN28G0318' => 'fan', 'FvH4_1g05260' => 'fve', 'FvH4_3g34750' => 'fve', 'FvH4_5g30890' => 'fve', 'FvH4_6g14630' => 'fve', 'FvH4_7g05820' => 'fve', 'Glyma.03G174100' => 'gma', 'Glyma.05G119300' => 'gma', 'Glyma.05G232300' => 'gma', 'Glyma.07G088600' => 'gma', 'Glyma.08G039700' => 'gma', 'Glyma.08G074300' => 'gma', 'Glyma.08G180500' => 'gma', 'Glyma.09G188200' => 'gma', 'Glyma.10G045700' => 'gma', 'Glyma.11G144500' => 'gma', 'Glyma.12G075300' => 'gma', 'Glyma.13G133600' => 'gma', 'Glyma.13G332001' => 'gma', 'Glyma.15G042200' => 'gma', 'Glyma.15G051900' => 'gma', 'Glyma.19G175100' => 'gma', 'Gohir.A01G219200' => 'ghi', 'Gohir.A03G037900' => 'ghi', 'Gohir.A03G172300' => 'ghi', 'Gohir.A04G078800' => 'ghi', 'Gohir.A05G021700' => 'ghi', 'Gohir.A05G098400' => 'ghi', 'Gohir.A07G003700' => 'ghi', 'Gohir.A12G014200' => 'ghi', 'Gohir.A13G093490' => 'ghi', 'Gohir.D01G208300' => 'ghi', 'Gohir.D02G195500' => 'ghi', 'Gohir.D03G130500' => 'ghi', 'Gohir.D04G118000' => 'ghi', 'Gohir.D05G023200' => 'ghi', 'Gohir.D05G098500' => 'ghi', 'Gohir.D07G004200' => 'ghi', 'Gohir.D07G099766' => 'ghi', 'Gohir.D12G014800' => 'ghi', 'Gorai.001G003800' => 'gra', 'Gorai.001G107500' => 'gra', 'Gorai.001G250300' => 'gra', 'Gorai.002G253400' => 'gra', 'Gorai.003G137300' => 'gra', 'Gorai.005G218500' => 'gra', 'Gorai.008G014900' => 'gra', 'Gorai.009G023400' => 'gra', 'Gorai.009G102100' => 'gra', 'Gorai.009G423000' => 'gra', 'GSVIVG01015420001' => 'vvi', 'GSVIVG01025049001' => 'vvi', 'GSVIVG01025598001' => 'vvi', 'GSVIVG01029765001' => 'vvi', 'HanXRQChr01g0010011' => 'han', 'HanXRQChr01g0026521' => 'han', 'HanXRQChr07g0194221' => 'han', 'HanXRQChr07g0196101' => 'han', 'HanXRQChr10g0317801' => 'han', 'HanXRQChr11g0336891' => 'han', 'HanXRQChr11g0339081' => 'han', 'HanXRQChr14g0453821' => 'han', 'Haze_10634' => 'cav', 'Haze_20716' => 'cav', 'Haze_24015' => 'cav', 'Haze_25689' => 'cav', 'Hma1.2p1_0018F.1_g013220' => 'hma', 'Hma1.2p1_0035F.1_g022000' => 'hma', 'Hma1.2p1_0111F.1_g053230' => 'hma', 'Hma1.2p1_0217F.1_g091800' => 'hma', 'Hma1.2p1_0846F.1_g227760' => 'hma', 'Hma1.2p1_1341F.1_g276880' => 'hma', 'HPP92_002334' => 'vpl', 'HPP92_019093' => 'vpl', 'HPP92_019811' => 'vpl', 'Hund05013' => 'sun', 'Hund06774' => 'sun', 'Hund09191' => 'sun', 'Hund18944' => 'sun', 'Hund24046' => 'sun', 'Hund26171' => 'sun', 'Lalb_Chr01g0003891' => 'lal', 'Lalb_Chr02g0153281' => 'lal', 'Lalb_Chr05g0222671' => 'lal', 'Lalb_Chr15g0090491' => 'lal', 'Lalb_Chr15g0090501' => 'lal', 'Lalb_Chr16g0387991' => 'lal', 'Lalb_Chr22g0352951' => 'lal', 'Lalb_Chr24g0394291' => 'lal', 'Lj1g0004558' => 'lja', 'Lj2A102T68' => 'lonja', 'Lj2A1050T28' => 'lonja', 'Lj2g0015057' => 'lja', 'Lj3g0003222' => 'lja', 'Lj3g0013527' => 'lja', 'Lj4g0026251' => 'lja', 'Lj5g0008191' => 'lja', 'Lj5g0012379' => 'lja', 'Lj6g0021802' => 'lja', 'Lsat_1_v5_gn_1_55101' => 'lsa', 'Lsat_1_v5_gn_2_104741' => 'lsa', 'Lsat_1_v5_gn_2_111241' => 'lsa', 'Lsat_1_v5_gn_5_100040' => 'lsa', 'Lsat_1_v5_gn_5_166641' => 'lsa', 'Lsat_1_v5_gn_7_81201' => 'lsa', 'Manes.03G068632' => 'mes', 'Manes.03G069148' => 'mes', 'Manes.04G029700' => 'mes', 'Manes.06G009700' => 'mes', 'Manes.08G074600' => 'mes', 'Manes.09G085600' => 'mes', 'Manes.11G135800' => 'mes', 'Mapoly0025s0089' => 'mpo', 'MBI01_g16639_MAGBIO' => 'mbi', 'MBI02_g20370_MAGBIO' => 'mbi', 'MBI04_g21508_MAGBIO' => 'mbi', 'MBI04_g25409_MAGBIO' => 'mbi', 'MBI04_g37462_MAGBIO' => 'mbi', 'MBI05_g07859_MAGBIO' => 'mbi', 'MBI14_g26676_MAGBIO' => 'mbi', 'MBI14_g45120_MAGBIO' => 'mbi', 'MCO03G037' => 'mco', 'MD02G1063000' => 'mdo', 'MD02G1255400' => 'mdo', 'MD03G1102100' => 'mdo', 'MD04G1118300' => 'mdo', 'MD07G1066200' => 'mdo', 'MD08G1221300' => 'mdo', 'MD11G1115900' => 'mdo', 'MD12G1133800' => 'mdo', 'MD15G1188800' => 'mdo', 'MD15G1412000' => 'mdo', 'Medtr1g067560' => 'mtr', 'Medtr4g062450' => 'mtr', 'Medtr4g094278' => 'mtr', 'Medtr4g094280' => 'mtr', 'Medtr6g086020' => 'mtr', 'Medtr7g100450' => 'mtr', 'Medtr8g103820' => 'mtr', 'MELO3C003095.2' => 'cme', 'MELO3C009286.2' => 'cme', 'MELO3C013671.2' => 'cme', 'MELO3C018661.2' => 'cme', 'MELO3C025323.2' => 'cme', 'MELO3C031348.2' => 'cme', 'Migut.B00629' => 'egut', 'Migut.D02139' => 'egut', 'Migut.J00382' => 'egut', 'Migut.J01075' => 'egut', 'Migut.L01628' => 'egut', 'Migut.L01630' => 'egut', 'MSTRG.10277' => 'ama', 'MSTRG.16570' => 'ama', 'MSTRG.19595' => 'ama', 'MSTRG.21178' => 'ama', 'MSTRG.27787' => 'ama', 'MSTRG.5696' => 'ama', 'Nitab4.5_0000643g0010' => 'nta', 'Nitab4.5_0000725g0130' => 'nta', 'Nitab4.5_0001027g0190' => 'nta', 'Nitab4.5_0001672g0120' => 'nta', 'Nitab4.5_0001953g0140' => 'nta', 'Nitab4.5_0002818g0030' => 'nta', 'Nitab4.5_0002865g0120' => 'nta', 'Nitab4.5_0003434g0090' => 'nta', 'Nitab4.5_0008047g0010' => 'nta', 'Nitab4.5_0009202g0010' => 'nta', 'Nitab4.5_0009945g0010' => 'nta', 'Nn1g01345' => 'nnu', 'Nn1g05252' => 'nnu', 'Nn2g10519' => 'nnu', 'Nn2g11807' => 'nnu', 'Nn2g12857' => 'nnu', 'Nn2g14778' => 'nnu', 'Nn3g20151' => 'nnu', 'Nn5g29010' => 'nnu', 'Nn8g39254' => 'nnu', 'Oeu000379.1' => 'oeu', 'Oeu026170.2' => 'oeu', 'Oeu027975.1' => 'oeu', 'Oeu029812.1' => 'oeu', 'Oeu040283.1' => 'oeu', 'Oeu058521.1' => 'oeu', 'Oeu060060.1' => 'oeu', 'Oeu060257.1' => 'oeu', 'Os01g0595201' => 'osa', 'Os01g0719600' => 'osa', 'Os01g0976300' => 'osa', 'Os03g0819400' => 'osa', 'Os05g0534500' => 'osa', 'Os08g0205400' => 'osa', 'Os08g0405700' => 'osa', 'Peaxi162Scf00001g00031' => 'pax', 'Peaxi162Scf00017g01716' => 'pax', 'Peaxi162Scf00039g00614' => 'pax', 'Peaxi162Scf00411g00048' => 'pax', 'Peaxi162Scf00546g00324' => 'pax', 'Peaxi162Scf00560g00514' => 'pax', 'PGR004G0431' => 'pgr', 'PGR102G0240' => 'pgr', 'PGR102G2885' => 'pgr', 'PGR142G1074' => 'pgr', 'PGR142G1607' => 'pgr', 'PGSC0003DMG400000385' => 'stu', 'PGSC0003DMG400012592' => 'stu', 'PGSC0003DMG400015555' => 'stu', 'PGSC0003DMG400017602' => 'stu', 'Phvul.001G171400' => 'pvu', 'Phvul.002G207200' => 'pvu', 'Phvul.002G314600' => 'pvu', 'Phvul.004G161300' => 'pvu', 'Phvul.006G207900' => 'pvu', 'Phvul.007G247500' => 'pvu', 'Phvul.011G068500' => 'pvu', 'Phvul.011G068700' => 'pvu', 'Phvul.L001641' => 'pvu', 'Phvul.L001741' => 'pvu', 'Potri.001G234700' => 'ptr', 'Potri.006G213900' => 'ptr', 'Potri.016G080400' => 'ptr', 'Potri.018G076400' => 'ptr', 'Pp3c15_23370' => 'ppa', 'Pp3c5_19300' => 'ppa', 'Pp3c9_19280' => 'ppa', 'PRCOL_00001759' => 'pco', 'Prupe.1G523200' => 'ppe', 'Prupe.1G558400' => 'ppe', 'Prupe.2G083400' => 'ppe', 'Prupe.6G007500' => 'ppe', 'Prupe.6G247400' => 'ppe', 'Prupe.7G227800' => 'ppe', 'Psat1g039800' => 'psa', 'Psat3g047320' => 'psa', 'Psat6g068560' => 'psa', 'Psat7g098080' => 'psa', 'Psat7g219920' => 'psa', 'PSO063G3180' => 'pso', 'PSO210G4792' => 'pso', 'PSO339G4906' => 'pso', 'PSO384G0938' => 'pso', 'PSO447G0369' => 'pso', 'PSO541G0988' => 'pso', 'PSO675G0661' => 'pso', 'PSO782G4387' => 'pso', 'QL01p033621' => 'qlo', 'QL02p085919' => 'qlo', 'QL07p046572' => 'qlo', 'QL11p019480' => 'qlo', 'RcHm_v2.0_Chr1g0332931' => 'rch', 'RcHm_v2.0_Chr2g0090981' => 'rch', 'RcHm_v2.0_Chr3g0467751' => 'rch', 'RcHm_v2.0_Chr5g0062481' => 'rch', 'RcHm_v2.0_Chr7g0226171' => 'rch', 'Rhsim01G0092100' => 'rsi', 'Rhsim01G0092800' => 'rsi', 'Rhsim01G0093900' => 'rsi', 'Rhsim05G0186100' => 'rsi', 'Rhsim11G0135300' => 'rsi', 'Rhsim13G0087800' => 'rsi', 'RhsimUnG0009000' => 'rsi', 'Sabra06G0164800' => 'sbr', 'Sabra16G0088600' => 'sbr', 'Sabra16G0140900' => 'sbr', 'Sabra18G0064800' => 'sbr', 'SalBow3G0232' => 'sbo', 'SalBow3G2776' => 'sbo', 'SalBow3G4444' => 'sbo', 'SalBow4G0218' => 'sbo', 'SalBow4G2001' => 'sbo', 'Sc12g0001770' => 'sci', 'Sc18g0001090' => 'sci', 'Sc20g0004370' => 'sci', 'Sed0005368' => 'sed', 'Sed0009087' => 'sed', 'Sed0013886' => 'sed', 'Sed0013887' => 'sed', 'Sed0018197' => 'sed', 'Sed0021716' => 'sed', 'Sed0023247' => 'sed', 'Sed0028169' => 'sed', 'SEGI_20735' => 'sgi', 'SEGI_31151' => 'sgi', 'SEGI_40589' => 'sgi', 'SGA_v2.0_scaffold126G33849' => 'sas', 'SGA_v2.0_scaffold134G34750' => 'sas', 'SGA_v2.0_scaffold332G48951' => 'sas', 'SGA_v2.0_scaffold75G24910' => 'sas', 'SGA_v2.0_scaffold94G28632' => 'sas', 'SMO347G0518' => 'smo', 'Solyc01g105000.3' => 'sly', 'Solyc10g085910.2' => 'sly', 'Solyc11g007200.3' => 'sly', 'Solyc11g073020.3' => 'sly', 'Solyc12g006997.1' => 'sly', 'Sopen01g047520' => 'spe', 'Sopen10g035290' => 'spe', 'Sopen11g030670' => 'spe', 'Sopen12g002960' => 'spe', 'Sp3g22210' => 'spa', 'Sp4g11520' => 'spa', 'Sp4g19700' => 'spa', 'Sp5g08800' => 'spa', 'Sp6g39910' => 'spa', 'TAR157G0001' => 'tar', 'TAR369G0211' => 'tar', 'TAR383G0256' => 'tar', 'TAR625G0965' => 'tar', 'TAR626G0145' => 'tar', 'TAR628G0050' => 'tar', 'TAR628G0525' => 'tar', 'TAR628G0651' => 'tar', 'TAR628G1736' => 'tar', 'THA.LOC104806592' => 'tha', 'THA.LOC104807161' => 'tha', 'THA.LOC104808751' => 'tha', 'THA.LOC104815767' => 'tha', 'THA.LOC104816294' => 'tha', 'THA.LOC104823433' => 'tha', 'THA.LOC104824508' => 'tha', 'Thecc.02G142500' => 'tca', 'Thecc.05G047000' => 'tca', 'Thecc.09G113700' => 'tca', 'Thecc.09G329300' => 'tca', 'Thhalv10002708m.g' => 'esa', 'Thhalv10010661m.g' => 'esa', 'Thhalv10015743m.g' => 'esa', 'Thhalv10017074m.g' => 'esa', 'Thhalv10017086m.g' => 'esa', 'TPR.G10443' => 'tpr', 'TPR.G27202' => 'tpr', 'TPR.G29932' => 'tpr', 'TPR.G31448' => 'tpr', 'TPR.G36970' => 'tpr', 'TWI14G0007' => 'twi', 'TWI14G0336' => 'twi', 'TWI34G1648' => 'twi', 'TWI53G1282' => 'twi', 'TWI59G1194' => 'twi', 'TWI63G0007' => 'twi', 'TWI77G0893' => 'twi', 'TWI79G0459' => 'twi', 'unitig_21.g21055' => 'ugi', 'unitig_26.g8980' => 'ugi', 'unitig_578.g15965' => 'ugi', 'unitig_578.g16392' => 'ugi', 'unitig_8.g4672' => 'ugi', 'unitig_899.g14477' => 'ugi', 'unitig_899.g14898' => 'ugi', 'vmacro01814' => 'vma', 'vmacro03121' => 'vma', 'vmacro20107' => 'vma', 'vmacro20663' => 'vma', 'VMungo0251G0089' => 'vmu', 'VMungo0251G0877' => 'vmu', 'VMungo0464G1073' => 'vmu', 'VMungo0540G0150' => 'vmu', 'VMungo0720G0142' => 'vmu', 'VMungo0720G1192' => 'vmu', 'VMungo1080G0175' => 'vmu', 'VMungo1127G0776' => 'vmu', 'VMungo1383G0767' => 'vmu', 'Zm00001eb001250' => 'zma', 'Zm00001eb032340' => 'zma', 'Zm00001eb062500' => 'zma', 'Zm00001eb131860' => 'zma', 'Zm00001eb154600' => 'zma', 'Zm00001eb178780' => 'zma', 'Zm00001eb182950' => 'zma', 'Zm00001eb211860' => 'zma', 'Zm00001eb242690' => 'zma', 'Zm00001eb290040' => 'zma', 'Zm00001eb357630' => 'zma', 'Zm00001eb361600' => 'zma' ) $gf_id = 'HOM05D000999' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000999' ) $data_identifier = 'HOM05D000999' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 5, 'ach' => (int) 6, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 16, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 18, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 5, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 7, 'fan' => (int) 19, 'fve' => (int) 5, 'gma' => (int) 16, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 8, 'cav' => (int) 4, 'hma' => (int) 6, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lja' => (int) 8, 'lonja' => (int) 2, 'lsa' => (int) 6, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mco' => (int) 1, 'mdo' => (int) 10, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 11, 'nnu' => (int) 9, 'oeu' => (int) 8, 'osa' => (int) 7, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 10, 'ptr' => (int) 4, 'ppa' => (int) 3, 'pco' => (int) 1, 'ppe' => (int) 6, 'psa' => (int) 5, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 7, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 3, 'sas' => (int) 5, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 8, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb361600' $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